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Trypan blue

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Trypan blue is a vital dye used in cell biology and biochemistry. It is a blue dye that can selectively color dead cells or cells with damaged membranes blue, while live cells with intact cell membranes are not colored. This property makes trypan blue a useful tool for distinguishing viable from non-viable cells in a cell suspension.

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Trypan blue is a commercialized product available through authorized distributors from the Merck Group. Prices typically range from $21.65 for a 100 mL solution to $377.00 for 100 g of powder.

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4 260 protocols using «trypan blue»

1

Cell Death Pathways Evaluation

2025
The materials used in this study were as follows: Triton™ X-100 (catalog no. P212121, Sigma Aldrich, Japan), phosphate-buffered saline (PBS, catalog no. F180725DS; Euroimmun-USA), acetone (catalog no. SF6F660388; Merck Life Science), para-formaldehyde (catalog no. GRM3660; Himedia-India), bovine serum albumin (BSA, catalog no. A2153-504 Sigma-USA), trypan blue (0.1%, catalog no. T8154# RNBD 8640, Sigma-Aldrich), Ficoll Histopaque (catalog no. 10771, MP Biomedicals, LLC, France), and propidium iodide (catalog no. 006990-42, e-biosciences). ELISA kits for the markers included in this study were purchased from Wuhan Fine Biotech, China, and included the following: human caspase-1 (catalog no. EH0595), caspase-3 (catalog no. EH0546), MLKL (catalog no. OKEH03401), p62/SQSTM1 (catalog no. EH10842), MHC I-A (catalog no. RK01844 ABclonal), MHC II-DRB1 (catalog no. RK01847 ABclonal), IL-1-beta (catalog no. EH0185) and IFN-gamma (catalog no. EH0164). The primary antibodies included apoptosis/necroptosis antibodies (sampler kit # 92570T Cell Signaling Technology, USA), rabbit monoclonal antibody against caspase-1 (CST, clone D7F10, catalog no. #2225S), rabbit monoclonal antibody against caspase-3 (CST, clone D3R6Y, catalog no. #14220), rabbit monoclonal antibody against MLKL (CST, clone D216N, catalog no. #14993), rabbit polyclonal antibody against p62/SQSTM1 (Fine Test, clone 7074P2, catalog no. #FNab06086), and rabbit monoclonal antibody against LC3B (CST, clone D3U4C catalog no. 12741S). The secondary antibodies used were anti-rabbit FITC (catalog no. 349031) and Alexa Fluor 546 (catalog no. A-21085, Invitrogen).
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2

Trypan Blue Assay for A549 Cell Viability

2025
Cell viability was assessed using Trypan blue staining (Trypan blue exclusion assay). A total of 1 × 104 A549 cells were seeded in 96-well plates overnight. The following day, the cells were exposed to equal concentrations of FcIgG-GE11 and Cetuximab in fresh medium for 24, 48, 72, and 96 h. After the treatment period, the medium was removed from the wells, and the cells were washed with 200 µL of PBS. To detach the cells, 100 µL of 0.5% trypsin/EDTA was added. Subsequently, DMEM supplemented with 10% FBS and 0.4% Trypan blue (Merck) was added to each well. After a 5-minute incubation, a 20 µL aliquot of the cell suspension was removed and placed on a Neubauer hemocytometer. The number of viable and non-viable cells was then counted using a microscope. Changes in cell viability were calculated and expressed as a percentage compared to control wells treated with PBS. All experiments were conducted in triplicate.
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3

Cell Viability Assessment via Trypan Blue

2025
The cell viability was evaluated by a Trypan Blue (Sigma-Aldrich, 72571) exclusion assay after treatments. Experiments were performed in triplicate and repeated at least three times.
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4

Isolation of Single-Cell Suspensions from Fascial Tissue

2025
After collection, fresh fascial samples were stored at 4 °C in the GEXSCOPE Tissue Preservation Solution (Cat# 1200050001, Singleron Biotechnologies, Nanjing, China) and processed within 24 h. Samples weighing over 200 mg were washed three times with Hanks Balanced Salt Solution and were, then minced into 1–2 mm3 pieces. Subsequently, they were digested in GEXSCOPE Tissue Dissociation Mix Buffer Solution (Cat# 1200000044, Singleron Biotechnologies, Nanjing, China) inside a thermostatic oscillator at 37 °C and 180 rpm for 15 min. Tissue lysates were filtered through a 40 μm sterile strainer (Cat# 352340, Corning, New York, USA), and any remaining red blood cells were eliminated by incubating in Red Blood Cell Lysis Buffer (Cat# 00-4333-57, ThermoFisher, Waltham, USA) at 4 °C for 10 min. The viability of final single-cell suspensions was determined using Trypan Blue (Cat# T8154, Sigma, St. Louis, USA) and acridine orange/propidium iodide staining (Cat# CS2-0106, Nexcelom, Lawrence, USA). Samples with a concentration exceeding 1.5 × 10cells/mL and 85% viability proceeded to the next step.
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5

Synthesis and Cellular Uptake of MSNs

2025
All the chemicals used for the synthesis of MSNs and the assessment of their cellular uptake, namely N-cetyltrimethylammonium bromide (CTAB), NaOH, Tetraethylorthosilicate (TEOS), Mesitylene, 1,1’-dioctadecyl-3,3,3’3’-tetramethylindocarbocyanine perchlorate (DiL) fluorescent dye, 4,6-diamidino-2-phenylindole (DAPI), and paraformaldehyde, were obtained from Sigma-Aldrich (Munich, Germany). Low molecular weight CS, β-glycerol phosphate (β-GP) disodium salt pentahydrate, and hydrochloric acid (HCL), which were used for the preparation of hydrogel, were also sourced from the same company. Additionally, Sigma-Aldrich supplied Trypan blue, resazurin, 5fu powder, dimethyl sulfoxide (DMSO), ketamine, Xylazine, and glutaraldehyde. Roswell Park Memorial Institute medium (RPMI-1640), fetal bovine serum (FBS), and penicillin/streptomycin were purchased from Gibco (Thermo Fisher Scientific, USA), while Annexin V-FITC/PI apoptosis detection kit was acquired from BD Biosciences (San Jose, CA, USA). EVE powder or RAD001 was provided by Novartis (Basel, Switzerland).
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Top 5 most cited protocols using «trypan blue»

1

Hepatocyte Toxicity Assay of Diclofenac


ChemicalsRhodamine 123, collagenase, bovine serum albumin (BSA), N-(2-hydroxyethyl) piperazine-N’-(2-ethanesulfonic acid) (HEPES), reduced and oxidized glutathione (GSH and GSSG), acridine orange, 2’,7’-dichlorofluorescin diacetate (DCFH-DA), trichloroacetic acid, trypan blue, heparin and diclofenac sodium were purchased from Sigma-Aldrich Co. (Taufkirchen, Germany). All other chemicals were of the highest commercial grade available.
AnimalsMale Sprague-Dawley rats weighing 280 to 300 g were housed in ventilated plastic cages over PWI 8-16 hardwood bedding. There were 12 air changes per hour, 12 h light photoperiod (lights on at 08:00 h) and an environmental temperature of 21-23°C with a 50-60% relative humidity. The animals were fed with a normal standard chow diet and tap water ad libitum. All experiments were conducted according to the ethical standards and protocols approved by the Committee of Animal Experimentation of Shahid Beheshti University of Medical Sciences, Tehran, Iran.
Isolation and incubation of hepatocytesHepatocytes were obtained by collagenase perfusion of the liver and the viability was assessed by plasma membrane disruption determined by trypan blue (0.2 w/v) exclusion test (19 (link)). Cells were suspended at a density of 106 Cells/mL in round-bottomed flasks rotating in a water bath maintained at 37°C in Krebs-Henseleit buffer (pH = 7.4), supplemented with 12.5 mM HEPES under an atmosphere of 10% O2, 85% N2 and 5% CO2. Each flask contained 10 mL of hepatocyte suspension. Hepatocytes were preincubated for 30 min prior to addition of chemicals. Stock solutions of all chemicals (×100 concentrated for the water solutions or ×1000 concentrated for the methanolic solutions) were prepared fresh prior to use. To avoid either non-toxic or very toxic conditions in this study, we used EC50 concentrations for diclofenac in the isolated hepatocytes. The EC50 of a chemical in hepatocyte cytotoxicity assessment technique (with the total 3 h incubation period) is defined as the concentration, which decreases the hepatocyte viability down to 50% following the 2 h of incubation (20 (link)). In order to determine this value for diclofenac, dose-response curves were plotted and then EC50 was determined based on a regression plot of three different concentrations (data and curves are not shown). To incubate diclofenac which is soluble in methanol, with the required concentration, we prepared methanolic stock solution (×1000 concentrated) and to achieve the required concentration in the hepatocytes, we added 10 μL samples of the stock solution to the 10 mL cell suspension. Ten μL of methanol did not affect the hepatocyte viability after 3 h incubation (data are not shown)
Cell viabilityThe viability of isolated hepatocytes was assessed from the intactness of the plasma membrane as determined by the trypan blue (0.2% w/v) exclusion test (19 (link)). Aliquots of the hepatocyte incubate were taken at different time points during the 3-h incubation period. At least, 80-90% of the control cells were still viable after 3 h.
Determination of reactive oxygen speciesTo determine the rate of hepatocyte reactive oxygen species (ROS) generation induced by diclofenac, dichlorofluorescein diacetate (DCFH-DA, 1.6 μM) was added to the hepatocytes. It penetrates hepatocyte cells and becomes hydrolyzed to non-fluorescent dichlorofluorescein (DCFH). The latter then reacts with ROS to form the highly fluorescent dichlorofluorescein (DCF), which effluxes the cell. The fluorescence intensity of DCF was measured using a Shimadzu RF5000U fluorescence spectrophotometer. Excitation and emission wavelengths were 500 nm and 520 nm, respectively. The results were expressed as fluorescent intensity per 106 cells (21 ).
Lipid peroxidation assayHepatocyte lipid peroxidation was determined by measuring the amount of thiobarbituric acid reactive substances (TBARS) formed during the decomposition of lipid hydroperoxides by following the absorbance at 532 nm in a Beckman DU-7 spectrophotometer (22 (link)).
Intracellular GSH and extra cellular GSSG assessmentGSH and GSSG were determined according to the spectrofluorometric method (23 (link)). Each sample was measured in quarts cuvettes using a fluorimeter set for 350 nm excitation and 420 nm emission wavelengths.
Mitochondrial membrane potential assayMitochondrial uptake of the cationic fluorescent dye, rhodamine123 (1.5 μM), has been used for the estimation of mitochondrial membrane potential. The amount of rhodamine123 remaining in the incubation medium was measured fluorimetrically using a Shimadzu RF5000U fluorescence spectrophotometer set at 490 nm excitation and 520 nm emission wavelengths. The capacity of mitochondria to take up the rhodamine123 was calculated as the difference (between control and treated cells) in rhodamine123 fluorescence. Our data were shown as the percentage of mitochondrial membrane potential collapse (%ΔΨm) in all treated (test) hepatocyte groups (24 (link)).
Lysosomal membrane integrity assayHepatocyte lysosomal membrane stability was determined from the redistribution of the fluorescent dye, acridine orange. Aliquots of the cell suspension (0.5 mL) that were previously stained with acridine orange (5 μM) were separated from the incubation medium by 1 min centrifugation at 1000 rpm. The cell pellet was then resuspended in 2 mL of fresh incubation medium. This washing process was carried out twice to remove the fluorescent dye from the media. acridine orange redistribution in the cell suspension was then measured fluorimetrically using a Shimadzu RF5000U fluorescence spectrophotometer set at 495 nm excitation and 530 nm emission wavelengths. Lysosomal membrane damage was determined as the difference in redistribution of acridine orange from lysosomes into cytosol between treated cells and control cells at the time of preparation. Our data were shown as the percentage of lysosomal membrane leakiness in all treated (test) hepatocyte groups (25 (link)).
Determination of proteolysisProteolysis was monitored using a fluorescence assay for tyrosine release (adapted from (26 (link))). An aliquot of the hepatocyte suspension was precipitated with an equal volume of 20% trichloroacetic acid and allowed to stand overnight at 4°C. The sample was vortexed and centrifuged in a benchtop clinical centrifuge (at 17,320×g) for 15 min. A volume of 1 mL aliquot of supernatant was removed and placed in a test tube to which 1 mL of 0.2% solution of 1-nitroso-2-naphthol and 1macid nitrite reagent (10 mg/mL NaNO2 in 20% HNO3) was added. The solution was vortexed, covered with parafilm and incubated at 37°C for 30 min.
A volume of 5 mL ethylene dichloride was added to the test tube, the mixture was vortexed vigorously and the sample was centrifuged for 10 min at high speed. The fluorescence of the aqueous phase was read in a Shimadzu RF5000U spectrophotometer (excitation at 460 nm and emission at 570 nm). The tyrosine content of the sample was determined from a standard curve constructed from known concentrations of tyrosine (0-100 μM).
Determination of caspase-3 activityCaspase-3 activity was determined in cell lysate of hepatocytes from different treatments using “Sigma’s caspase-3 assay kit (CASP-3-C)” (27 (link)). In brief, this colorimetric assay is based on the hydrolysis of substrate peptide, Ac-DEVD-pNA, through caspase-3. The released moiety (p-nitroaniline) has a high absorbance at 405 nm. The concentration of the p-nitroaniline (μM) released from the substrate is calculated from the absorbance values at 405 nm or from a calibration curve prepared with defined p-nitroaniline solutions.
Statistical analysisLevene’s test was used to check the homogeneity of variances. Data were analyzed using one-way analysis of variance (ANOVA) followed by Tukey’s HSD as the post-hoc test. Results were presented as mean ± SD of triplicate samples. The minimal level of significance chosen was p < 0.05.
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Corresponding organizations : Shahid Beheshti University of Medical Sciences

2

Cell Seeding and Viability Assay

Cells were seeded in six-well plates at 1.5 × 105 per well and allowed to attach overnight in high-glucose DMEM. Culture medium was then used as specified in the text and figures. In brief, for experiments using nonstandard DMEM, the standard DMEM was aspirated, and cells were washed once with PBS and refed with DMEMPhysio (5 mM glucose, 0.5 mM L-glutamine, 5% FBS). Viable cells were counted at the indicated times by Trypan blue (Sigma, T1854) exclusion using a hemocytometer. Each well was counted separately twice, and an average was taken of the four different counts per cell line per condition. After each count, 1.5 × 105 cells were reseeded per well in the appropriate medium in new six-well plates.
Additional Materials and Methods are detailed in the Supplemental Material.
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Corresponding organizations : Massachusetts General Hospital, Harvard University, Massachusetts Institute of Technology, University Medical Center Utrecht

3

Quantitative Analysis of Lipid Mediators

Authentic standards of 2-AG, 2-AG-d8, arachidonic acid (AA), AA-d8, prostaglandin E2 glyceryl ester (PGE2-G), prostaglandin F2α glyceryl ester (PGF2α-G), PGE2, PGF2α, and 8-iso-PGF2α-d4 were from Cayman Chemicals (Ann Arbor, MI). p-Nitrophenyl valerate (pNPV), 4-methylumbelliferyl acetate (4-MUBA), and 4-methylumbelliferyl oleate (4-MUBO) were from Sigma (St. Louis, MO). Paraoxon (PO) was a kind gift from Dr. Howard Chambers (Mississippi State University). Hexadecylsulfonylfluoride (HDSF) was purchased from Calbiochem. Trypan blue, β-mercaptoethanol, phorbol 12-myristate 13-acetate (PMA), methyl arachidonoylfluorophosphonate (MAFP), fatty-acid free bovine serum albumin (BSA), penicillin, streptomycin, puromycin, and all buffer components were purchased from Sigma. The activity-based serine hydrolase probe, fluorophosphonate-biotin (FP-biotin), was from Toronto Research Chemicals (North York, Ontario). Streptavidin-agarose beads and avidin-horseradish peroxidase were from Sigma. HPLC grade solvents were from Thermo-Fisher.
Human THP1 monocytes, HepG2 cells, RPMI-1640 medium, Dulbecco's modified Eagle's medium (DMEM), gentamicin sulfate solution (50 mg/mL), and Hank's balanced salt solution without calcium, magnesium, or phenol red were purchased from the American Type Culture Collection (ATCC) (Manassas, VA). Fetal bovine serum (FBS) was purchased from Invitrogen (Carlsbad, CA). Primary mouse macrophages were obtained from lavage of the peritoneal cavity of adult female B6C3F1 mice using sterile-PBS containing 3% (v/v) FBS. Washed cells (PBS) were plated overnight in DMEM supplemented with 10% (v/v) FBS and antibiotics (penicillin/streptomycin) and adherent cells harvested. Primary human monocytes were commercially obtained from Astarte Biologics (Redmond, WA).
CHO-hPPT1 cells were a kind gift from Dr. Sandra Hofmann (University of Texas Southwest Medical Center, Dallas, USA). Nucleoside-deficient minimum essential medium (Gibco), dialyzed FBS (Gemini), F-12 medium (Invitrogen), and serum-free medium (Hyclone CD4CHO) were obtained for culturing CHO-hPPT1 cells. Lentiviruses containing scrambled shRNA (non-specific) and CES1 shRNA were from Santa Cruz Biotechnology.
Recombinant human CES1 was expressed in baculovirus-infected Spodoptera frugiperda cells and purified as previously described 22 (link). Recombinant KIAA1363 was overexpressed in COS7 cells transfected with an expression vector containing KIA1363 cDNA (Origene). Anti-CES1, anti-PPT1 antibody (ab89022), and anti-β-actin antibodies were purchased from Abcam (Cambridge, MA).
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Corresponding organizations : Mississippi State University, Jiangsu Academy of Agricultural Sciences

4

Gastric Cancer Spheroid Culture Assay

FACS-sorted human gastric cancer cells were inoculated in each well (10 cells per well or otherwise indicated) of ultra-low-attachment 96-well plates (Corning Life Sciences, Acton, MA, http://www.corning.com/lifesciences) supplemented with 100–200 μl of RPMI-1640 medium (Invitrogen) plus 10 mM HEPES, human recombinant epidermal growth factor (EGF) (Invitrogen) at the concentration of 20 ng/ml, and human recombinant basic fibroblast growth factor (bFGF) (Invitrogen) at the concentration of 10 ng/ml. The cell viability was assessed by staining with trypan blue (Sigma-Aldrich) at several time points. After 4 or 5 weeks, each well was examined using light microscope and total well numbers with spheroid colonies were counted. Images of the spheroid colonies were recorded using light and fluorescence dual microscopy ECLIPSE TE-2000U (Nikon Instruments Inc., Melville, NY; http://www.nikoninstruments.com) in phase-contrast mode and SPOT RT-KE digital camera (Diagnostics Instruments Inc., Sterling Heights, MI; http://www.diaginc.com). Images were acquired and converted to TIFF files using SPOT software (version 4.6).
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Corresponding organizations : Columbia University, University of Toyama, Kaohsiung Medical University

5

Gemcitabine Cytotoxicity Assay Protocol

Gemcitabine and 3H-gemcitabine were obtained from Moravek Radiochemicals (Brea, CA) and Chemie Tek (Indianapolis, IN), respectively. Fetal bovine serum (FBS) was from PAA Laboratories Inc. (Ontario, Canada). Uridine, cytosine, inosine, crystal violet, G418, nitrobenzyl mercaptopurine riboside (NBMPR), 4’,6’-diamidino-2-phenylindole (DAPI), dimethylsulfoxide (DMSO), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT), trypan blue, cycloheximide, propidium iodide, Z-Leu-Leu-Leu-al (MG 132) and leupeptin hemisulfate salt were obtained from Sigma-Aldrich (St. Louis, MO). Bicinchoninic acid (BCA) protein assay reagent was from Pierce Chemical (Rockford, IL). Fluorescent anti-fade mounting reagent and Vybrant DyeCycle green were obtained from Molecular Probes (Invitrogen). Plastic wares for cell culture were obtained from Corning, NY.
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Corresponding organizations : University of Georgia

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